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Department of Mathematics,
University of California San Diego

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Informal Seminar on Mathematics and Biochemistry-Biophysics

Riccardo Baron

UCSD \\ Department of Chemistry and Biochemistry

Water: Active or Passive Player in Cavity-Ligand Recognition & Binding?

Abstract:

We use a straightforward approach based on potential of mean force calculations from explicit solvent molecular dynamics simulations to derive complete thermodynamic signatures of cavity-ligand binding. Using extensive sampling, free energy, enthalpy, and entropy estimates are obtained along the binding coordinate for a set of systems with varying cavity and ligand physicochemical properties, thus revealing an unprecedented, nanoscale picture of hydration thermodynamics. Despite the simplicity of the model systems considered, a broad range of thermodynamic signatures is found in which water (rather then cavity or ligand) contributions appear to largely determine the overall system enthalpy-entropy compensation.

Hosts: Li-Tien Cheng and Bo Li

February 25, 2010

1:00 PM

AP&M 5829

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